{"id":"https://openalex.org/W2607429263","doi":"https://doi.org/10.1371/journal.pcbi.1005496","title":"Inferring modulators of genetic interactions with epistatic nested effects models","display_name":"Inferring modulators of genetic interactions with epistatic nested effects models","publication_year":2017,"publication_date":"2017-04-13","ids":{"openalex":"https://openalex.org/W2607429263","doi":"https://doi.org/10.1371/journal.pcbi.1005496","mag":"2607429263","pmid":"https://pubmed.ncbi.nlm.nih.gov/28406896"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1005496","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005496","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005496&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005496&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5029725058","display_name":"Martin Pirkl","orcid":"https://orcid.org/0000-0002-6986-0813"},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]},{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Martin Pirkl","raw_affiliation_strings":["ETH Zurich, Department of Biosystems Science and Engineering, Basel, Switzerland","SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"ETH Zurich, Department of Biosystems Science and Engineering, Basel, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043533129","display_name":"Madeline Diekmann","orcid":"https://orcid.org/0000-0002-1221-6314"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Madeline Diekmann","raw_affiliation_strings":["ETH Zurich, Department of Biosystems Science and Engineering, Basel, Switzerland","SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"ETH Zurich, Department of Biosystems Science and Engineering, Basel, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026276934","display_name":"Marlies van der Wees","orcid":"https://orcid.org/0000-0003-1402-2764"},"institutions":[{"id":"https://openalex.org/I887064364","display_name":"University of Amsterdam","ror":"https://ror.org/04dkp9463","country_code":"NL","type":"education","lineage":["https://openalex.org/I887064364"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Marlies van der Wees","raw_affiliation_strings":["University of Amsterdam, Amsterdam, The Netherlands"],"affiliations":[{"raw_affiliation_string":"University of Amsterdam, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I887064364"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035497488","display_name":"Niko Beerenwinkel","orcid":"https://orcid.org/0000-0002-0573-6119"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Niko Beerenwinkel","raw_affiliation_strings":["ETH Zurich, Department of Biosystems Science and Engineering, Basel, Switzerland","SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"ETH Zurich, Department of Biosystems Science and Engineering, Basel, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054001409","display_name":"Holger Fr\u00f6hlich","orcid":"https://orcid.org/0000-0002-5328-1243"},"institutions":[{"id":"https://openalex.org/I4210166732","display_name":"UCB Pharma (Germany)","ror":"https://ror.org/05pkeac16","country_code":"DE","type":"company","lineage":["https://openalex.org/I4210166732","https://openalex.org/I85722119"]},{"id":"https://openalex.org/I4210164149","display_name":"Bonn Aachen International Center for Information Technology","ror":"https://ror.org/054zhq066","country_code":"DE","type":"facility","lineage":["https://openalex.org/I135140700","https://openalex.org/I155417937","https://openalex.org/I4210164149","https://openalex.org/I4923324"]},{"id":"https://openalex.org/I135140700","display_name":"University of Bonn","ror":"https://ror.org/041nas322","country_code":"DE","type":"education","lineage":["https://openalex.org/I135140700"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Holger Fr\u00f6hlich","raw_affiliation_strings":["Bonn-Aachen International Center for IT (B-IT), University of Bonn, Bonn, Germany","UCB Biosciences GmbH, Monheim, Germany"],"affiliations":[{"raw_affiliation_string":"Bonn-Aachen International Center for IT (B-IT), University of Bonn, Bonn, Germany","institution_ids":["https://openalex.org/I4210164149","https://openalex.org/I135140700"]},{"raw_affiliation_string":"UCB Biosciences GmbH, Monheim, Germany","institution_ids":["https://openalex.org/I4210166732"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083151857","display_name":"Florian Markowetz","orcid":"https://orcid.org/0000-0002-2784-5308"},"institutions":[{"id":"https://openalex.org/I4210089382","display_name":"Cancer Research UK Cambridge Center","ror":"https://ror.org/0068m0j38","country_code":"GB","type":"facility","lineage":["https://openalex.org/I241749","https://openalex.org/I2801316944","https://openalex.org/I4210089382"]},{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Florian Markowetz","raw_affiliation_strings":["University of Cambridge, Cancer Research UK Cambridge Institute, Cambridge, United Kingdom"],"affiliations":[{"raw_affiliation_string":"University of Cambridge, Cancer Research UK Cambridge Institute, Cambridge, United Kingdom","institution_ids":["https://openalex.org/I4210089382","https://openalex.org/I241749"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5083151857"],"corresponding_institution_ids":["https://openalex.org/I241749","https://openalex.org/I4210089382"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2418,"currency":"EUR","value_usd":2607},"fwci":1.0071,"has_fulltext":true,"cited_by_count":15,"citation_normalized_percentile":{"value":0.75050472,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"13","issue":"4","first_page":"e1005496","last_page":"e1005496"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9986000061035156,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/epistasis","display_name":"Epistasis","score":0.9126913547515869},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6090307831764221},{"id":"https://openalex.org/keywords/bioconductor","display_name":"Bioconductor","score":0.5809522867202759},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.48385870456695557},{"id":"https://openalex.org/keywords/gene-interaction","display_name":"Gene interaction","score":0.46471723914146423},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.4547322690486908},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4442428946495056},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.43294867873191833},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.416811466217041},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.41299015283584595},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.38626936078071594},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.20691391825675964}],"concepts":[{"id":"https://openalex.org/C61727976","wikidata":"https://www.wikidata.org/wiki/Q751748","display_name":"Epistasis","level":3,"score":0.9126913547515869},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6090307831764221},{"id":"https://openalex.org/C2779694297","wikidata":"https://www.wikidata.org/wiki/Q2888953","display_name":"Bioconductor","level":3,"score":0.5809522867202759},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.48385870456695557},{"id":"https://openalex.org/C2991772755","wikidata":"https://www.wikidata.org/wiki/Q751748","display_name":"Gene interaction","level":3,"score":0.46471723914146423},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.4547322690486908},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4442428946495056},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.43294867873191833},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.416811466217041},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.41299015283584595},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.38626936078071594},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.20691391825675964},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005800","descriptor_name":"Genes, Fungal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005800","descriptor_name":"Genes, Fungal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005800","descriptor_name":"Genes, Fungal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005800","descriptor_name":"Genes, Fungal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005800","descriptor_name":"Genes, Fungal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.1371/journal.pcbi.1005496","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005496","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005496&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:28406896","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28406896","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:research-collection.ethz.ch:20.500.11850/243131","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.11850/243131","pdf_url":null,"source":{"id":"https://openalex.org/S4306402302","display_name":"Repository for Publications and Research Data (ETH Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I35440088","host_organization_name":"ETH Zurich","host_organization_lineage":["https://openalex.org/I35440088"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology, 13 (4)","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:doaj.org/article:f2da76bcbacf4d0faea151c40ce313db","is_oa":true,"landing_page_url":"https://doaj.org/article/f2da76bcbacf4d0faea151c40ce313db","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 13, Iss 4, p e1005496 (2017)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:5407847","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5407847","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:www.repository.cam.ac.uk:1810/265906","is_oa":true,"landing_page_url":"https://www.repository.cam.ac.uk/handle/1810/265906","pdf_url":null,"source":{"id":"https://openalex.org/S4306401777","display_name":"Apollo (University of Cambridge)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I241749","host_organization_name":"University of Cambridge","host_organization_lineage":["https://openalex.org/I241749"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Article"},{"id":"pmh:oai:www.research-collection.ethz.ch:20.500.11850/191400","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.11850/191400","pdf_url":null,"source":{"id":"https://openalex.org/S4306402302","display_name":"Repository for Publications and Research Data (ETH Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I35440088","host_organization_name":"ETH Zurich","host_organization_lineage":["https://openalex.org/I35440088"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, 13 (4)","raw_type":"info:eu-repo/semantics/article"},{"id":"doi:10.17863/cam.12274","is_oa":true,"landing_page_url":"https://doi.org/10.17863/cam.12274","pdf_url":null,"source":{"id":"https://openalex.org/S7407050737","display_name":"Apollo","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"},{"id":"doi:10.3929/ethz-b-000191400","is_oa":true,"landing_page_url":"https://doi.org/10.3929/ethz-b-000191400","pdf_url":null,"source":{"id":"https://openalex.org/S7407051236","display_name":"ETH Z\u00fcrich Research Collection","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1005496","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005496","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005496&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1708250660","display_name":null,"funder_award_id":"51RTP0_151029","funder_id":"https://openalex.org/F4320327577","funder_display_name":"SystemsX.ch"},{"id":"https://openalex.org/G4552916813","display_name":null,"funder_award_id":"C14303/A17197","funder_id":"https://openalex.org/F4320319985","funder_display_name":"Cancer Research UK"}],"funders":[{"id":"https://openalex.org/F4320319985","display_name":"Cancer Research UK","ror":"https://ror.org/054225q67"},{"id":"https://openalex.org/F4320327577","display_name":"SystemsX.ch","ror":"https://ror.org/02s09gf16"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2607429263.pdf","grobid_xml":"https://content.openalex.org/works/W2607429263.grobid-xml"},"referenced_works_count":63,"referenced_works":["https://openalex.org/W1970030142","https://openalex.org/W1971224531","https://openalex.org/W1978397703","https://openalex.org/W1980305675","https://openalex.org/W2008109277","https://openalex.org/W2011876692","https://openalex.org/W2013520054","https://openalex.org/W2017671390","https://openalex.org/W2019136808","https://openalex.org/W2065398669","https://openalex.org/W2069412330","https://openalex.org/W2073307618","https://openalex.org/W2075665671","https://openalex.org/W2084005781","https://openalex.org/W2090867005","https://openalex.org/W2093269314","https://openalex.org/W2100603120","https://openalex.org/W2100761975","https://openalex.org/W2103454055","https://openalex.org/W2105924489","https://openalex.org/W2112441403","https://openalex.org/W2116093604","https://openalex.org/W2119541898","https://openalex.org/W2119778725","https://openalex.org/W2124876377","https://openalex.org/W2126276987","https://openalex.org/W2127020923","https://openalex.org/W2128049108","https://openalex.org/W2130139983","https://openalex.org/W2133102806","https://openalex.org/W2140116490","https://openalex.org/W2140948740","https://openalex.org/W2144791939","https://openalex.org/W2148780239","https://openalex.org/W2150627960","https://openalex.org/W2152482800","https://openalex.org/W2155573334","https://openalex.org/W2159460045","https://openalex.org/W2159474073","https://openalex.org/W2160697532","https://openalex.org/W2160863167","https://openalex.org/W2163296115","https://openalex.org/W2163485494","https://openalex.org/W2163906048","https://openalex.org/W2165054897","https://openalex.org/W2167334954","https://openalex.org/W2173603050","https://openalex.org/W2205662772","https://openalex.org/W2209688796","https://openalex.org/W2241711086","https://openalex.org/W2271163371","https://openalex.org/W2340974016","https://openalex.org/W2522417827","https://openalex.org/W2561508962","https://openalex.org/W2561754210","https://openalex.org/W2562947047","https://openalex.org/W2577994754","https://openalex.org/W2582743722","https://openalex.org/W3006419771","https://openalex.org/W3098183178","https://openalex.org/W3099289621","https://openalex.org/W3104952140","https://openalex.org/W6683607874"],"related_works":["https://openalex.org/W249159571","https://openalex.org/W4206544128","https://openalex.org/W2321864844","https://openalex.org/W2045593579","https://openalex.org/W4387745214","https://openalex.org/W4390571475","https://openalex.org/W4283740027","https://openalex.org/W2313263927","https://openalex.org/W370275759","https://openalex.org/W2031302781"],"abstract_inverted_index":{"Maps":[0],"of":[1,18,25,63,76,83,116,137,153],"genetic":[2,26,154],"interactions":[3,100],"can":[4,29,57,149],"dissect":[5],"functional":[6],"redundancies":[7],"in":[8,39,112,124,141,160],"cellular":[9],"networks.":[10],"Gene":[11],"expression":[12],"profiles":[13],"as":[14],"high-dimensional":[15,90],"molecular":[16],"readouts":[17],"combinatorial":[19],"perturbations":[20],"provide":[21],"a":[22,54,64,81,117],"detailed":[23],"view":[24],"interactions,":[27],"but":[28],"be":[30,58],"hard":[31],"to":[32,88,94,132,151],"interpret":[33],"if":[34],"different":[35,40],"gene":[36,55,66,91],"sets":[37],"respond":[38],"ways":[41],"(called":[42],"mixed":[43,51],"epistasis).":[44],"Here":[45],"we":[46,144],"test":[47],"the":[48,61,69,74,113,126,161],"hypothesis":[49],"that":[50,67,98,146],"epistasis":[52],"between":[53,101],"pair":[56],"explained":[59],"by":[60],"action":[62],"third":[65],"modulates":[68],"interaction.":[70],"We":[71,108],"have":[72],"extended":[73],"framework":[75],"Nested":[77],"Effects":[78],"Models":[79],"(NEMs),":[80],"type":[82],"graphical":[84],"model":[85],"specifically":[86],"tailored":[87],"analyze":[89],"perturbation":[92],"data,":[93],"incorporate":[95],"logical":[96],"functions":[97],"describe":[99],"regulators":[102],"on":[103],"downstream":[104],"genes":[105],"and":[106,120,139,167],"proteins.":[107],"benchmark":[109],"our":[110],"approach":[111,157],"controlled":[114],"setting":[115],"simulation":[118],"study":[119],"show":[121,145],"high":[122],"accuracy":[123],"inferring":[125],"correct":[127],"model.":[128],"In":[129],"an":[130],"application":[131],"data":[133],"from":[134,165],"deletion":[135],"mutants":[136],"kinases":[138],"phosphatases":[140],"S.":[142],"cerevisiae":[143],"epistatic":[147],"NEMs":[148],"point":[150],"modulators":[152],"interactions.":[155],"Our":[156],"is":[158],"implemented":[159],"R-package":[162],"'epiNEM'":[163],"available":[164],"https://github.com/cbg-ethz/epiNEM":[166],"https://bioconductor.org/packages/epiNEM/.":[168]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":4}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
